Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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Gene Rank Value Type Filtered description Interaction Map Network Comparison Type red network_comparison green

Results: HTML CSV LaTeX

Showing element 501 to 550 of 14920 in total

Interaction Map

: High confidence
Network Comparison Type

: Divided

Rank	Value Type	Filtered	description	red	network_comparison	green
63	Squared	0	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	1.24091	3.3984	0.365145
	Squared	1	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	219048	1.68808	129762
	Rooted	0	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	18.1049	1.43581	12.6095
	Rooted	1	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	43.4554	1.36835	31.7576
64	Measured	0	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]	0.00001	1800000	18
	Measured	1	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	4489.19	1.6231	2765.82
	Ranked	0	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	15264	1.33563	20387
	Ranked	1	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	266.868	1.25965	336.159
	Squared	0	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	50.8715	3.33542	15.2519
	Squared	1	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	219048	1.68808	129762
	Rooted	0	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	15.7225	1.43422	22.5496
	Rooted	1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	63.8686	1.35128	47.2654
65	Measured	0	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]	18	1800000	0.00001
	Measured	1	neuralized-like. [refseq;acc:nm_004210]	1657.68	1.6229	2690.25
	Ranked	0	e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]	7853.67	1.32502	10406.3
	Ranked	1	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	267.136	1.25807	336.077
	Squared	0	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	50.642	3.33538	15.1833
	Squared	1	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	219048	1.68808	129762
	Rooted	0	60s ribosomal protein l21. [swissprot;acc:p46778]	20.5734	1.42072	29.2291
	Rooted	1	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	63.8686	1.35128	47.2654
66	Measured	0	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]	688.436	1.78524	385.626
	Measured	1	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	1991.03	1.61795	3221.38
	Ranked	0	heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	11461	1.32449	15180
	Ranked	1	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	267.136	1.25807	336.077
	Squared	0	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	1797.76	3.2204	558.241
	Squared	1	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	219048	1.68808	129762
	Rooted	0	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	30.9855	1.40854	21.9983
	Rooted	1	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	63.8686	1.35128	47.2654
67	Measured	0	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	1603	1.78508	898
	Measured	1	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	6475.5	1.59177	10307.5
	Ranked	0	presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341]	10793.5	1.32408	14291.5
	Ranked	1	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	267.14	1.25805	336.075
	Squared	0	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	608.191	3.1865	190.865
	Squared	1	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	219048	1.68808	129762
	Rooted	0	isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252]	11.0051	1.39177	15.3166
	Rooted	1	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	63.8686	1.35128	47.2654
68	Measured	0	protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981]	198.964	1.76802	351.772
	Measured	1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	6475.5	1.59177	10307.5
	Ranked	0	purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491]	8932.56	1.32362	11823.3
	Ranked	1	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]	267.139	1.25805	336.075
	Squared	0	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	31.36	3136000	0.00001
	Squared	1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	219048	1.68808	129762
	Rooted	0	alpha crystallin a chain. [swissprot;acc:p02489]	6.22183	1.38766	8.63381
	Rooted	1	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	63.8686	1.35128	47.2654
69	Measured	0	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	1593	1.7602	2804
	Measured	1	spermatogenesis associated 6. [refseq;acc:nm_019073]	6475.5	1.59177	10307.5
	Ranked	0	collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400]	7704.7	1.32051	10174.1
	Ranked	1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	267.14	1.25805	336.075
	Squared	0	protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981]	16.2406	3.12432	50.7408
	Squared	1	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	219048	1.68808	129762

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.

- http://analysis.yellowcouch.org/